Back to Multiple platform build/check report for BioC 3.17: simplified long |
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This page was generated on 2023-09-30 11:37:13 -0400 (Sat, 30 Sep 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4626 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4379 |
merida1 | macOS 12.6.4 Monterey | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4395 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 925/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
HiCBricks 1.18.0 (landing page) Koustav Pal
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 12.6.4 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
To the developers/maintainers of the HiCBricks package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/HiCBricks.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: HiCBricks |
Version: 1.18.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings HiCBricks_1.18.0.tar.gz |
StartedAt: 2023-09-30 02:39:09 -0400 (Sat, 30 Sep 2023) |
EndedAt: 2023-09-30 02:45:57 -0400 (Sat, 30 Sep 2023) |
EllapsedTime: 408.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: HiCBricks.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings HiCBricks_1.18.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.17-bioc/meat/HiCBricks.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-apple-darwin20 (64-bit) * R was compiled by Apple clang version 14.0.3 (clang-1403.0.22.14.1) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.6.4 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘HiCBricks/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘HiCBricks’ version ‘1.18.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘HiCBricks’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed Brick_export_to_sparse 5.627 0.450 7.848 Brick_vizart_plot_heatmap 4.542 0.487 6.321 Brick_local_score_differentiator 3.965 0.605 5.750 BrickContainer_unlink_resolution 4.029 0.228 5.171 Brick_fetch_row_vector 3.668 0.391 5.150 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: OK
HiCBricks.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL HiCBricks ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library’ * installing *source* package ‘HiCBricks’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (HiCBricks)
HiCBricks.Rcheck/HiCBricks-Ex.timings
name | user | system | elapsed | |
BrickContainer_change_experiment_name | 2.696 | 0.166 | 3.647 | |
BrickContainer_change_output_directory | 2.043 | 0.122 | 2.766 | |
BrickContainer_get_path_to_file | 1.900 | 0.108 | 2.596 | |
BrickContainer_list_chromosomes | 1.835 | 0.104 | 2.489 | |
BrickContainer_list_experiment_name | 1.856 | 0.101 | 2.567 | |
BrickContainer_list_files | 1.923 | 0.104 | 2.563 | |
BrickContainer_list_output_directory | 1.846 | 0.104 | 2.457 | |
BrickContainer_list_resolutions | 1.845 | 0.103 | 2.519 | |
BrickContainer_unlink_resolution | 4.029 | 0.228 | 5.171 | |
Brick_add_ranges | 3.914 | 0.177 | 4.970 | |
Brick_call_compartments | 2.968 | 0.438 | 4.236 | |
Brick_export_to_sparse | 5.627 | 0.450 | 7.848 | |
Brick_fetch_range_index | 2.222 | 0.113 | 3.006 | |
Brick_fetch_row_vector | 3.668 | 0.391 | 5.150 | |
Brick_get_bintable | 1.943 | 0.111 | 2.617 | |
Brick_get_chrominfo | 1.848 | 0.105 | 2.501 | |
Brick_get_entire_matrix | 2.662 | 0.337 | 3.815 | |
Brick_get_matrix | 2.569 | 0.390 | 3.683 | |
Brick_get_matrix_mcols | 2.553 | 0.421 | 3.669 | |
Brick_get_matrix_within_coords | 3.591 | 0.428 | 4.952 | |
Brick_get_ranges | 1.926 | 0.110 | 2.575 | |
Brick_get_values_by_distance | 2.840 | 0.406 | 4.169 | |
Brick_get_vector_values | 2.635 | 0.393 | 3.839 | |
Brick_list_matrices | 1.854 | 0.110 | 2.506 | |
Brick_list_matrix_mcols | 1.833 | 0.109 | 2.469 | |
Brick_list_mcool_normalisations | 0.001 | 0.000 | 0.001 | |
Brick_list_mcool_resolutions | 0.000 | 0.001 | 0.001 | |
Brick_list_rangekeys | 1.844 | 0.113 | 2.473 | |
Brick_list_ranges_mcols | 1.845 | 0.108 | 2.507 | |
Brick_load_cis_matrix_till_distance | 2.379 | 0.292 | 3.350 | |
Brick_load_data_from_mcool | 0.000 | 0.001 | 0.001 | |
Brick_load_data_from_sparse | 0.001 | 0.001 | 0.002 | |
Brick_load_matrix | 2.481 | 0.426 | 3.675 | |
Brick_local_score_differentiator | 3.965 | 0.605 | 5.750 | |
Brick_make_ranges | 0.020 | 0.001 | 0.027 | |
Brick_matrix_dimensions | 2.509 | 0.403 | 3.770 | |
Brick_matrix_exists | 2.502 | 0.361 | 3.615 | |
Brick_matrix_filename | 2.517 | 0.460 | 3.764 | |
Brick_matrix_isdone | 2.482 | 0.478 | 3.767 | |
Brick_matrix_issparse | 2.479 | 0.336 | 3.509 | |
Brick_matrix_maxdist | 2.547 | 0.399 | 3.634 | |
Brick_matrix_minmax | 2.483 | 0.343 | 3.595 | |
Brick_mcool_normalisation_exists | 0.000 | 0.001 | 0.001 | |
Brick_rangekey_exists | 1.836 | 0.109 | 2.464 | |
Brick_return_region_position | 2.032 | 0.111 | 2.709 | |
Brick_vizart_plot_heatmap | 4.542 | 0.487 | 6.321 | |
Create_many_Bricks | 1.846 | 0.117 | 2.513 | |
Create_many_Bricks_from_mcool | 0.000 | 0.001 | 0.002 | |
load_BrickContainer | 1.946 | 0.117 | 2.611 | |